I commented on the video about the Jaguar version. Apparently, he couldn't get it to work and that's why it was not included.
One fascinating fact is that the only mainstream Atari machine that never got a version of Missile Command is the 7800, I always found this pretty strange. It came out on the 2600, 400/800/XL/XE, Lynx, ST, Jaguar, 5200 and it was also built into the XEGS.
Ah Missile Command. I've had a love/hate relationship with this one. Of course many versions played with a joypad just don't feel right. My favorite version is definitely VR in the Jag version, I've wondered how this would play with a trackball instead of the joypad (or VR headset of course). The ST version looks a bit bland to be honest. I would think that the ST could have pulled off something better. And while MC original is not my favorite Atari game, a 7800 version would have been a better pack in than Pole Position II (assuming it would have done what other 7800 conversions did with offering 2p play)